Hello Sowmya,
From the errors at the bottom of the screenshot, it looks like the processes are failing due to insufficient memory. (“error: Cannot allocate memory”) It also looks like the recons are being run via the ‘reconbatchjobs’ utility, but I might be incorrect about that.
I would suggest running the recons on a machine with more RAM, and/or running the jobs in sequence rather than parallel, so the jobs are not competing for resources.
Best, Jackson
From: Sambamoorthy, Sowmya Sowmya.Sambamoorthy@UTDallas.edu Date: Wednesday, September 17, 2025 at 3:38 PM To: freesurfer@nmr.mgh.harvard.edu freesurfer@nmr.mgh.harvard.edu Cc: Kidwai, Ambereen Amber.Kidwai@utdallas.edu Subject: [Freesurfer] Recon failing: normal vector of length zero at vertex NNNNN with N faces
External Email - Use Caution Hello!
Need help getting past these errors (attached recon log) for reference. Many of my brains are throwing errors like below: “normal vector of length zero at vertex 101440 with 6 faces first tangent vector of length zero at vertex 101440”
Last few lines of recon.log below: [cid:image001.png@01DC27E0.966D3810]
Any help appreciated!
Thank you in advance for your support.
--Sowmya
